In routine practice, biomarker performance is calculated by splitting a patient cohort at some arbitrary level, often by median gene expression. The logic behind this is to divide patients into “high” or “low” expression groups that in turn correlate with either good or poor prognosis. However, this mediansplit approach assumes that the data set composition adheres to a strict 1:1 proportion of high vs. low expression, that for every one “low” there is an equivalent “high”. In reality, data sets are often heterogeneous in their composition (Perou, CM et al., 2000 <doi:10.1038/35021093>) i.e. this 1:1 relationship is unlikely to exist and the true relationship unknown. Given this limitation, it remains difficult to determine where the most significant separation should be made. For example, estrogen receptor (ER) status determined by immunohistochemistry is standard practice in predicting hormone therapy response, where ER is found in an ~1:3 ratio (:+) in the population (Selli, C et al., 2016 <doi:10.1186/s1305801607790>). We would expect therefore, upon dividing patients by ER expression, 25% to be classified “low” and 75% “high”, and an otherwise 5050 split to incorrectly classify 25% of our patient cohort, rendering our survival estimate under powered. 'survivALL' is a datadriven approach to calculate the relative survival estimates for all possible points of separation  i.e. at all possible ratios of “high” vs. “low”  allowing a measure’s relationship with survival to be more reliably determined and quantified. We see this as a solution to a flaw in common research practice, namely the failure of a true biomarker as part of a metaanalysis.
Package details 


Author  Dominic Pearce [aut, cre] 
Maintainer  Dominic Pearce <[email protected]> 
License  MIT + file LICENSE 
Version  0.9.3 
Package repository  View on CRAN 
Installation 
Install the latest version of this package by entering the following in R:

Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.